BtaINT0031267 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021066 | CAPN11
Description
calpain 11 [Source:HGNC Symbol;Acc:HGNC:1478]
Coordinates
chr23:17817927-17818169:+
Coord C1 exon
chr23:17817927-17817984
Coord A exon
chr23:17817985-17818104
Coord C2 exon
chr23:17818105-17818169
Length
120 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGT
5' ss Score
7.77
3' ss Seq
TGCCCCTCCCTCCCTCACAGTCA
3' ss Score
10.19
Exon sequences
Seq C1 exon
GGCAAGGAGATAGGCATGTATGAGCTACAGAAGCTGCTCAACAAGGTGGTCTCCAGAT
Seq A exon
GTGAGTCTTCCGCCCGCTACAATCCTTCCCTTAATCACCCTTAATCACCCCTGCCCTCCTCCCCATCCCAGCAACACTCAGCCACCCCTCCCCTTCTTTCTGCCCCTCCCTCCCTCACAG
Seq C2 exon
TCAAAAACTTCAAAACCAAGGGCTTCAGCCTGGACGTGTGCCGCTGCATGGTCAACCTCTTGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021066:ENSBTAT00000004690:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138331=EF-hand_8=FE(31.1=100)
A:
NA
C2:
PF138331=EF-hand_8=FE(34.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCAAGGAGATAGGCATGTATGA
R:
TCCAAGAGGTTGACCATGCAG
Band lengths:
122-242
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]